8 citations · 9 across the 3 of their papers we have counts for
3 papers
Contact-based molecular dynamics of structured and disordered proteins in a coarse-grained model: fixed contacts, switchable contacts and those described by pseudo-improper-dihedral angles
Łukasz Mioduszewski, Jakub Bednarz, Mateusz Chwastyk +1
We present a coarse-grained C-based protein model that can be used to simulate structured, intrinsically disordered and partially disordered proteins. We use a Go-like potential…
The GōMartini approach: Revisiting the concept of contact maps and the modelling of protein complexes
Luis F. Cofas-Vargas, Rodrigo A. Moreira, Simón Poblete +2
We present a review of a series of contact maps for the determination of native interactions in proteins and nucleic acids based on a distance-threshold. Such contact maps are most…
Topological transformations in proteins: effects of heating and proximity of an interface
Yani Zhao, Mateusz Chwastyk, Marek Cieplak
Using a structure-based coarse-grained model of proteins, we study the mechanism of unfolding of knotted proteins through heating. We find that the dominant mechanisms of unfolding…